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Archiver > GENEALOGY-DNA > 2012-03 > 1330790202


From: Obed W Odom <>
Subject: Re: [DNA] New Online Tool for Haplotype Analysis (only fory-Haplogroups I1 and I2 at present)
Date: Sat, 03 Mar 2012 09:56:42 -0600
References: <CACPdyDnGMs_2G81uwWzkdowX+7Yk7+gxbJex1qrRHoqF0H09_g@mail.gmail.com><4F51DDB8.7020405@mail.utexas.edu><4BE2AC28-B87F-4575-8D4A-C4A1433F8B90@gmail.com>
In-Reply-To: <4BE2AC28-B87F-4575-8D4A-C4A1433F8B90@gmail.com>


Terry, the inability to obtain a result at DYS425 is an uncommon but
well known phenomenon and is due to a
recombinational-loss-of-heterozygosity (recLOH) event between arms of a
palindrome, which prevents binding of the DYS425 forward primer (due to
a single t to c change in the primer binding site). The FTDNA advanced
test DYF371X shows what has happened. This test gives results for all 4
arms of the palindrome while the DYS425 test only gives results for 1 of
the 4 arms, the "t" arm, which usually corresponds to the second of the
4 values reported in the DYF371X test. Most I1 people have a DYF371X
result of 10c-12t-13c-14c, but my DYF371X result is 10c-10c-13c-14c.
This shows that the 12t, which would give a value of 12 in the DYS425
test, has been overwritten in my case by a copying of the 10c palindrome
arm. This loss of the "t" allele also occurs in other haplogroups, and
invariably results in no value being obtained in the DYS425 test.

Obed

On 3/3/2012 4:24 AM, Terry Robb wrote:
> Obed,
> You seem to have a null value reported for DYS425, so my code dropped you from the analysis. I could probably substitute in some value, but would prefer not too.
>
> Have you ever followed up with FTDNA about why they couldn't read your DYS425?
>
> Terry
>
>
>
> On 03/03/2012, at 20:00, Obed W Odom<> wrote:
>
>> Terry, my kit # 85047 and Ysearch ID RQAQ2 don't seem to be recognized
>> by your program. I am I1-Z138+/Z139+ (I1f2).
>> I am a member of the Haplogroup I1 project and the I1>Z58+ and I1>Z63+
>> project.Can you check on this?
>>
>> Thanks,
>> Obed
>>
>> On 3/1/2012 10:46 PM, Terry wrote:
>>> There are common questions that people often have in regards to their
>>> 67-marker STR test results.
>>>
>>> Such as place of geographic origin, likely SNP mutations, or close
>>> haplotype matches etc.
>>>
>>> To answer such questions it helps to know where someone's 67-marker STR
>>> result fits in with everyone else's result. A rational way of organising
>>> results is to compute a hierarchical cluster tree, and then systematically
>>> label each person in that tree according to an STR "Branch Code". This
>>> Branch Code labelling system is very similar to the "Henry System" used in
>>> genealogy for numbering the known descendants of an ancestor.
>>>
>>> Easiest to see what I mean, by checking out the tool at:
>>>
>>> http://www.goggo.com/cgi-bin/branchFind.cgi
>>>
>>> You can enter your FTDNA Kit Number or Ysearch ID (currently only works for
>>> haplogroups I1 and I2), and if the entry is valid, you will get your Branch
>>> Code, and then the following output:
>>>
>>> 1) a short list of close matches, and the estimated time-frame for the
>>> common ancestor of the very closest match;
>>>
>>> 2) a map showing the frequency of occurrence of your Branch Code in all
>>> countries/regions across Europe;
>>>
>>> 3) a list of SNP mutation pathways, with suggestions for your likely path
>>> based on your Branch Code.
>>>
>>> Finally, there is a link that discusses the simple methodology I used, and
>>> that link also gives additional details such as the computed tree showing
>>> the "big picture" view of how people in y-Haplogroups I1 and I2 are
>>> connected.
>>>
>>> Eventually, I may add y-Haplogroups R1b and R1a.
>>>
>>> In the meantime, for I1 and I2 people, let me know how you go.
>>>
>>> Terry
>>>
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